Clustering of low usage codons in the translation initiation region of hepatitis C virus

文献类型： 外文期刊

第一作者： Zhou, Jian-hua

作者： Zhou, Jian-hua;Su, Jun-hong;Chen, Hao-tai;Zhang, Jie;Ma, Li-na;Ding, Yao-zhong;Liu, Yong-sheng;Stipkovits, Laszlo;Szathmary, Susan;Pejsak, Zygmunt

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关键词： Hepatitis C virus;Synonymous codon usage value;Overall codon usage pattern;Translation initiation region

期刊名称：INFECTION GENETICS AND EVOLUTION （ 影响因子：3.342； 五年影响因子：3.188 ）

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收录情况： SCI

摘要： The adaptation of the overall codon usage pattern of hepatitis C virus (HCV) to that of human is estimated by the synonymous codon usage value (RSCU). The synonymous codon usage biases for the translation initiation region (TIR) of this virus are also analyzed by calculation of usage fluctuation of each synonymous codon along the TIR (the first 30 codon sites of the whole coding sequence of HCV). As for the overall codon usage pattern of HCV, this virus has a significant tendency to delete the codons with CpG or TpA dinucleotides. Turning to the adaptation of the overall codon usage of HCV to that of human, over half part of codons has a similar usage pattern between this virus and human, suggesting that the host cellular environment of the overall codon usage pattern influences the formation of codon usage for HCV. In addition, there is no obvious phenomenon that the codons with relatively low energy tend to be highly selected in the TIR of HCV, suggesting that the synonymous codon usage patterns for the TIR of HCV might be not affected by the secondary structure of nucleotide sequence, however, the formation of synonymous codons usage in the TIR of HCV is influenced by the overall codon usage patterns of human to some degree

分类号： R1

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